plot_genespringGX_lines: Perform a GeneSpring GX 7.3.1 line plot

In drmjc/microarrays: A collection of microarray and genomic helper code.

Description

Perform a GeneSpring GX 7.3.1 line plot

Usage

  plot_genespringGX_lines(data,
    row.centre = c("median", "mean", "none"),
    colour.by = 1, symmetrical = TRUE, main = "",
    xlab = "", ylab = "Expression Ratio (log2)", las = 2,
    colour.by.line = TRUE, lwd = 0.5, bg.col = "black",
    alpha = 0.2, ...)

Arguments

data	matrix or data.frame of gene expression data
row.centre	the method to use to centre each gene expression trait. one of “median”, “mean”, or “none”
colour.by	which array to use to set the colour
symmetrical	logical: make the y-axis symmetrical
main	the plot title
xlab	the x-axis title
ylab	the y-axis title
las	see par. default=2
colour.by.line	logical: if TRUE add a vertical line to indicate which array was used to set the colour (see colour.by)
lwd	line width
bg.col	the default background colour. default=“black”
alpha	control the opacity of the lines. default=0.2
...	arguments passed to plot.matrix

Value

none.

Author(s)

Mark Cowley

Examples

m <- matrix(rnorm(1000*10),1000,10)
plot_genespringGX_lines(m)

drmjc/microarrays documentation built on May 15, 2019, 2:26 p.m.